TB-Profiler result

Run: ERR1034665
Summary

Run ID: ERR1034665

Sample name:

Date: 31-03-2023 09:32:26

Number of reads: 2472471

Percentage reads mapped: 99.64

Strain: lineage4.8

Drug-resistance: MDR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
rpoB 761110 p.Asp435Val missense_variant 0.98 rifampicin
katG 2155167 p.Ser315Arg missense_variant 1.0 isoniazid
embB 4247495 p.Asp328Tyr missense_variant 1.0 ethambutol
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoC 762893 c.-477C>T upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.36
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746807 c.792G>A synonymous_variant 1.0
thyX 3067481 c.465C>T synonymous_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.33
rpoA 3878641 c.-135delG upstream_gene_variant 0.11
clpC1 4038857 c.1848C>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249397 p.Ala962Pro missense_variant 0.11
ubiA 4269529 p.Ala102Gly missense_variant 0.17
whiB6 4338464 p.Asp20Tyr missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338614 c.-93G>C upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0